miRNA display CGI


Results 1 - 20 of 25 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
23381 5' -63.6 NC_005259.1 + 5085 0.68 0.268841
Target:  5'- -cGggCCGGUGUCACCGGCgauCUGCguagacCGCGu -3'
miRNA:   3'- caCa-GGCCACGGUGGCCG---GACG------GCGU- -5'
23381 5' -63.6 NC_005259.1 + 8047 0.67 0.288716
Target:  5'- cUGUCCGacaCCGCCGGUC-GCCGCc -3'
miRNA:   3'- cACAGGCcacGGUGGCCGGaCGGCGu -5'
23381 5' -63.6 NC_005259.1 + 13092 0.7 0.185656
Target:  5'- --aUCCGGUGCCACCGaCCccgGcCCGCu -3'
miRNA:   3'- cacAGGCCACGGUGGCcGGa--C-GGCGu -5'
23381 5' -63.6 NC_005259.1 + 13418 0.66 0.331884
Target:  5'- cUGgCCGGggucGCCGCCGGg--GCCGCGc -3'
miRNA:   3'- cACaGGCCa---CGGUGGCCggaCGGCGU- -5'
23381 5' -63.6 NC_005259.1 + 13494 0.66 0.355184
Target:  5'- aUGUCuCGGUcccucGCC-CCGGUCUGUCGg- -3'
miRNA:   3'- cACAG-GCCA-----CGGuGGCCGGACGGCgu -5'
23381 5' -63.6 NC_005259.1 + 14497 0.66 0.355184
Target:  5'- cUGcUCGGUGCCcgcaugcacACCGGCgaGCaCGCGg -3'
miRNA:   3'- cACaGGCCACGG---------UGGCCGgaCG-GCGU- -5'
23381 5' -63.6 NC_005259.1 + 15550 0.66 0.362394
Target:  5'- cUGgCCGGUGCCACCcucagguGGCCacccucgggGCCaGCGc -3'
miRNA:   3'- cACaGGCCACGGUGG-------CCGGa--------CGG-CGU- -5'
23381 5' -63.6 NC_005259.1 + 20151 0.69 0.221237
Target:  5'- -cGgcagCCGGUGCCcuggccACCGcGCCcGCCGCc -3'
miRNA:   3'- caCa---GGCCACGG------UGGC-CGGaCGGCGu -5'
23381 5' -63.6 NC_005259.1 + 25687 0.66 0.360783
Target:  5'- -aGgCCGGUGUcccaccccaaaggaCACCGGCCUcGCUGUu -3'
miRNA:   3'- caCaGGCCACG--------------GUGGCCGGA-CGGCGu -5'
23381 5' -63.6 NC_005259.1 + 25933 0.68 0.275341
Target:  5'- -gGUCCGGUgagcgcacGCCGgugcCCGGCCcGCCGaCGc -3'
miRNA:   3'- caCAGGCCA--------CGGU----GGCCGGaCGGC-GU- -5'
23381 5' -63.6 NC_005259.1 + 28640 0.66 0.339524
Target:  5'- ---aCCGGUGCCgacACC-GCCgagGCCGCc -3'
miRNA:   3'- cacaGGCCACGG---UGGcCGGa--CGGCGu -5'
23381 5' -63.6 NC_005259.1 + 31716 0.7 0.195274
Target:  5'- aUG-CCGGUcuucucugagGUgACCGcGCCUGCCGCGa -3'
miRNA:   3'- cACaGGCCA----------CGgUGGC-CGGACGGCGU- -5'
23381 5' -63.6 NC_005259.1 + 33463 0.66 0.363202
Target:  5'- cGUG-CCGG-GUguCUGGaCUGCCGCAc -3'
miRNA:   3'- -CACaGGCCaCGguGGCCgGACGGCGU- -5'
23381 5' -63.6 NC_005259.1 + 34221 0.69 0.238189
Target:  5'- aUGUccCCGGcGCUGCCGGUCuUGCCGUu -3'
miRNA:   3'- cACA--GGCCaCGGUGGCCGG-ACGGCGu -5'
23381 5' -63.6 NC_005259.1 + 35599 0.66 0.355184
Target:  5'- -gGUCgGGUGCguCCuGGCCacGCUGCGu -3'
miRNA:   3'- caCAGgCCACGguGG-CCGGa-CGGCGU- -5'
23381 5' -63.6 NC_005259.1 + 35632 0.71 0.167669
Target:  5'- -aGUUCGG-GCCGCCGcCgCUGCCGCu -3'
miRNA:   3'- caCAGGCCaCGGUGGCcG-GACGGCGu -5'
23381 5' -63.6 NC_005259.1 + 38726 0.66 0.347291
Target:  5'- ---aCCGcUGCCGCCguaccggcgguGGCCcGCCGCAg -3'
miRNA:   3'- cacaGGCcACGGUGG-----------CCGGaCGGCGU- -5'
23381 5' -63.6 NC_005259.1 + 38942 0.71 0.15126
Target:  5'- uGUGcCCGGUGCCGCUGccGCCgagaGCCuGCAc -3'
miRNA:   3'- -CACaGGCCACGGUGGC--CGGa---CGG-CGU- -5'
23381 5' -63.6 NC_005259.1 + 40439 0.66 0.324371
Target:  5'- -aGUCUGGUGUg--UGGCCUGCCGg- -3'
miRNA:   3'- caCAGGCCACGgugGCCGGACGGCgu -5'
23381 5' -63.6 NC_005259.1 + 45645 0.66 0.331884
Target:  5'- -cG-CCGGUGCCGCCGugaacaccGCC-GuCCGCGu -3'
miRNA:   3'- caCaGGCCACGGUGGC--------CGGaC-GGCGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.